New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1584163 =	27 (0.680)	4 (0.110)	4/254	5.1	14.1%	intergenic (‑204/+44)	safA/ydeP	two‑component system connector membrane protein, EvgSA to PhoQP/putative oxidoreductase
	?	NC_000913_3_pae_tpiA	1584194 =	24 (0.660)					intergenic (‑235/+13)	safA/ydeP	two‑component system connector membrane protein, EvgSA to PhoQP/putative oxidoreductase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAGGG  >  NC_000913_3_pae_tpiA/1584046‑1584339                                                                                                                                                     |                                                                                                                                                  cTGGTGTTTCAGTAATGAGCTGAGTTTCTTACAGATGTAGTCAGAAGTTTATATCTTATAGGATGTAGTTTAATGTAATCCATGTTAGCACATTGCGAAATAATAGTCAATGAGGAATTGTTCTGCTGTGCGGATGACAGCAGAAGaaa                                                                                                                                                   <  2:313139/149‑1 (MQ=255)  tGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAAt                                                                                                                                                  <  2:575331/149‑1 (MQ=255)  tGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAAt                                                                                                                                                  >  1:447079/1‑149 (MQ=255)                    cGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAAGTTAATCCATGTGAGCAAATTGCGAAATAATAGTCTATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAAttt                                                                                                                                <  2:539234/149‑1 (MQ=255)                      gAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGATCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGa                                                                                                                              <  2:77938/149‑1 (MQ=255)                             ttACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCt                                                                                                                       <  2:126364/149‑1 (MQ=255)                                   cTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCa                                                                                                                 >  2:278892/1‑149 (MQ=255)                                                tttATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACttt                                                                                                    >  1:495696/1‑149 (MQ=255)                                                      tCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTCATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGc                                                                                              >  1:570235/1‑149 (MQ=255)                                                       cTTATAGTATGTTGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGcc                                                                                             <  1:405014/149‑1 (MQ=255)                                                       cTTATAGCATATAATTTAAATTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGcc                                                                                             <  1:551126/149‑1 (MQ=255)                                                              tATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATg                                                                                      <  2:495696/149‑1 (MQ=255)                                                                       taatttaatCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAAt                                                                             <  1:622137/149‑1 (MQ=255)                                                                       taattgaatCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAAt                                                                             <  2:381383/149‑1 (MQ=255)                                                                                  aTGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGTATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGtt                                                                  >  2:450340/1‑149 (MQ=255)                                                                                  aTGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGtt                                                                  >  1:60620/1‑149 (MQ=255)                                                                                            aTTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGtt                                                        <  1:278892/149‑1 (MQ=255)                                                                                                 gAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCAt                                                   >  1:271109/1‑149 (MQ=255)                                                                                                    ataataGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCAtgtg                                                >  2:335518/1‑149 (MQ=255)                                                                                                                         ttctGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACttt                                                                                                    <  1:177125/76‑1 (MQ=255)                                                                                                                         ttctGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACttt                                                                                                    >  2:177125/1‑76 (MQ=255)                                                                                                                         ttctGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGt                           <  2:271109/149‑1 (MQ=255)                                                                                                                         tactgctgGGCGGATGAAAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGt                           <  1:236900/147‑1 (MQ=255)                                                                                                                                        gACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTc            <  2:60620/149‑1 (MQ=255)                                                                                                                                           agcagAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATa                              <  1:35161/128‑1 (MQ=255)                                                                                                                                           agcagAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATa                              >  2:35161/1‑128 (MQ=255)                                                                                                                                            gcagAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGcc        >  1:272941/1‑149 (MQ=255)                                                                                                                                              agaagaAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCAt      >  1:416757/1‑149 (MQ=255)                                                                                                                                                aagaaaagaaAAAAGGCAATAATTTGATGATTCTAATTCAACCGGAATACTTTTATAGACAGGAATACCACCTAATGGACCGTGGTTATCAAGTGTAACCATGCGATTCGATTCTGGAAAATAAGTCACCAGTCAGCGGTCAGCCATac    <  2:619986/149‑2 (MQ=255)                                                                                                                                                aagaaATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCGACTTAATGAATAGTAGTTATAAAGTGTTAGCATGTGGTTAGATTCTGGAAAAGAGTTTACCAGTGAGCGGGCGGCCATAg    >  1:188770/1‑149 (MQ=255)                                                                                                                                                 agaaATGAGAAGAGGCATTAATTTGATGGGTCGAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAgg   <  1:213030/149‑1 (MQ=255)                                                                                                                                                  gaaATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGCGAGCGCTCAGCCATAggg  >  1:249296/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                  CTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAGGG  >  NC_000913_3_pae_tpiA/1584046‑1584339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.